Nextflow workflow report

[prickly_bhabha]

Workflow execution completed unsuccessfully!

The exit status of the task that caused the workflow execution to fail was: null.

The full error message was:

Error executing process > 'NFCORE_SEQINSPECTOR:SEQINSPECTOR:FASTQC (SAMPLE_PAIRED_END_2_2)'

Caused by:
  Process requirement exceeds available memory -- req: 36 GB; avail: 16 GB


Command executed:

  printf "%s %s\n" Bpacificus-ATCC10987-rep2-sWGS-MiSeqi100-241111_S2_L001_R1_001.fastq.gz SAMPLE_PAIRED_END_2_2_1.gz Bpacificus-ATCC10987-rep2-sWGS-MiSeqi100-241111_S2_L001_R2_001.fastq.gz SAMPLE_PAIRED_END_2_2_2.gz | while read old_name new_name; do
      [ -f "${new_name}" ] || ln -s $old_name $new_name
  done
  
  fastqc \
      --quiet \
      --threads 6 \
      --memory 6144.0 \
      SAMPLE_PAIRED_END_2_2_1.gz SAMPLE_PAIRED_END_2_2_2.gz
  
  cat <<-END_VERSIONS > versions.yml
  "NFCORE_SEQINSPECTOR:SEQINSPECTOR:FASTQC":
      fastqc: $( fastqc --version | sed '/FastQC v/!d; s/.*v//' )
  END_VERSIONS

Command exit status:
  -

Command output:
  (empty)

Work dir:
  /Users/agrimabhatt/seqinspector/work/05/ee064086b5f37281337d282530be7e

Container:
  quay.io/biocontainers/fastqc:0.12.1--hdfd78af_0

Tip: when you have fixed the problem you can continue the execution adding the option `-resume` to the run command line
Run times
14-Oct-2025 11:41:26 - 14-Oct-2025 11:41:36 (duration: 9.9s)
  2 succeeded  
  0 cached  
  0 ignored  
  1 failed (0 retries)  
Nextflow command
nextflow run main.nf -profile test,docker --input /Users/agrimabhatt/pipeline/testdata/testdata/Miseq_PairedEnd/samplesheet.csv --outdir result -with-report
CPU-Hours
(a few seconds)
Launch directory
/Users/agrimabhatt/seqinspector
Work directory
/Users/agrimabhatt/seqinspector/work
Project directory
/Users/agrimabhatt/seqinspector
Script name
main.nf
Script ID
51ae67c7a1786a7937e7c520871990bd
Workflow session
e0b4cec2-cbfd-47c6-b4f8-bd0494c5c17a
Workflow profile
test,docker
Nextflow version
version 25.04.7, build 5955 (08-09-2025 13:29 UTC)

Resource Usage

These plots give an overview of the distribution of resource usage for each process.

CPU

Memory

Job Duration

I/O

Tasks

This table shows information about each task in the workflow. Use the search box on the right to filter rows for specific values. Clicking headers will sort the table by that value and scrolling side to side will reveal more columns.

(tasks table omitted because the dataset is too big)